Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 69 of 185
Found at i:21778897 original size:24 final size:23
Alignment explanation
Indices: 21778846--21778900 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
21778836 AATATATCAT
*
21778846 AAATATAACTTACATAACATACGT
1 AAATATAACTTACATAACATAC-A
21778870 AAATATAACTTACATAATACATA-A
1 AAATATAACTTACAT-A-ACATACA
21778894 AAATATA
1 AAATATA
21778901 TCATATCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 22 0.79
25 1 0.04
26 5 0.18
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (23 bp):
AAATATAACTTACATAACATACA
Found at i:21778932 original size:52 final size:53
Alignment explanation
Indices: 21778874--21779053 Score: 174
Period size: 52 Copynumber: 3.4 Consensus size: 53
21778864 ATACGTAAAT
*
21778874 ATAACTTACATAA-TACATAAAAATATATCATATCATAACTTACACAACTCGC
1 ATAACTTACATAATTACATAAAAATATATCATATCATAACTTACACAACTCAC
* * *
21778926 ATAACTTACATAACTTACATAATACATAAATAT-ATATCAT-A--T-CATAACTTAC
1 ATAACTTACATAA-TTACATAA-A-A-ATATATCATATCATAACTTACACAACTCAC
* * * * *
21778978 ATAACTTACATAATTTACATAAATATATATCATATCAAAACTTACATAATTTAC
1 ATAACTTACATAA-TTACATAAAAATATATCATATCATAACTTACACAACTCAC
*
21779032 ATAACTCACATAACTTACATAA
1 ATAACTTACATAA-TTACATAA
21779054 CTTACATAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
49 5 0.05
50 6 0.06
51 2 0.02
52 41 0.38
53 2 0.02
54 36 0.34
55 2 0.02
56 8 0.07
57 5 0.05
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (53 bp):
ATAACTTACATAATTACATAAAAATATATCATATCATAACTTACACAACTCAC
Found at i:21778937 original size:9 final size:9
Alignment explanation
Indices: 21778907--21779171 Score: 155
Period size: 9 Copynumber: 30.7 Consensus size: 9
21778897 TATATCATAT
21778907 CATAACTTA
1 CATAACTTA
* **
21778916 CACAACTCG
1 CATAACTTA
21778925 CATAACTTA
1 CATAACTTA
21778934 CATAACTTA
1 CATAACTTA
21778943 CATAA--TA
1 CATAACTTA
*
21778950 CATAA-ATA
1 CATAACTTA
* * *
21778958 TATATCATA
1 CATAACTTA
21778967 TCATAACTTA
1 -CATAACTTA
21778977 CATAACTTA
1 CATAACTTA
*
21778986 CATAATTTA
1 CATAACTTA
*
21778995 CATAA-ATA
1 CATAACTTA
* * *
21779003 TATATCATA
1 CATAACTTA
*
21779012 TCAAAACTTA
1 -CATAACTTA
*
21779022 CATAATTTA
1 CATAACTTA
*
21779031 CATAACTCA
1 CATAACTTA
21779040 CATAACTTA
1 CATAACTTA
21779049 CATAACTTA
1 CATAACTTA
21779058 CATAA--TA
1 CATAACTTA
*
21779065 CATAA-ATA
1 CATAACTTA
* * *
21779073 TATATCATA
1 CATAACTTA
* *
21779082 TCATAGCTGA
1 -CATAACTTA
21779092 CATAACTTA
1 CATAACTTA
**
21779101 TTTATACTTA
1 CATA-ACTTA
*
21779111 TATAA--TA
1 CATAACTTA
21779118 CATAACTTA
1 CATAACTTA
21779127 CATAA--TA
1 CATAACTTA
21779134 CATAA---A
1 CATAACTTA
*
21779140 TATAACTTA
1 CATAACTTA
*
21779149 CATAACTTT
1 CATAACTTA
21779158 CATAAC-TA
1 CATAACTTA
21779166 CATAAC
1 CATAAC
21779172 GTATTTATAC
Statistics
Matches: 202, Mismatches: 40, Indels: 29
0.75 0.15 0.11
Matches are distributed among these distances:
6 5 0.02
7 27 0.13
8 22 0.11
9 124 0.61
10 24 0.12
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:21778945 original size:61 final size:61
Alignment explanation
Indices: 21778874--21779098 Score: 275
Period size: 61 Copynumber: 3.8 Consensus size: 61
21778864 ATACGTAAAT
* *
21778874 ATAACTTACATAATACATAAAAATATATCATATCATAACTTACACAACTCGCATAACTTAC
1 ATAACTTACATAATACATAAAAATATATCATATCATAACTTACATAACTCACATAACTTAC
* * *
21778935 ATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTTACATAATTTAC
1 ATAACTTACATAATACATAAAAATATATCATATCATAACTTACATAACTCACATAACTTAC
* * ** * *
21778996 ATAA-ATATAT-AT-CATATCAA-A-A-CTTA-CATAATTTACATAACTCACATAACTTAC
1 ATAACTTACATAATACATAAAAATATATCATATCATAACTTACATAACTCACATAACTTAC
* * *
21779050 ATAACTTACATAATACATAAATATATATCATATCATAGCTGACATAACT
1 ATAACTTACATAATACATAAAAATATATCATATCATAACTTACATAACT
21779099 TATTTATACT
Statistics
Matches: 134, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
54 29 0.22
55 7 0.05
56 3 0.02
57 6 0.04
58 6 0.04
59 3 0.02
60 7 0.05
61 73 0.54
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (61 bp):
ATAACTTACATAATACATAAAAATATATCATATCATAACTTACATAACTCACATAACTTAC
Found at i:21779012 original size:45 final size:44
Alignment explanation
Indices: 21778925--21779044 Score: 188
Period size: 45 Copynumber: 2.7 Consensus size: 44
21778915 ACACAACTCG
21778925 CATAACTTACATAACTTACATAA-TACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAATTACATAAATATATATCATAT
21778968 CATAACTTACATAACTTACATAATTTACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAA-TTACATAAATATATATCATAT
* * *
21779013 CAAAACTTACATAATTTACATAACTCACATAA
1 CATAACTTACATAACTTACATAA-TTACATAA
21779045 CTTACATAAC
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 23 0.32
45 48 0.68
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.34
Consensus pattern (44 bp):
CATAACTTACATAACTTACATAATTACATAAATATATATCATAT
Found at i:21790569 original size:39 final size:39
Alignment explanation
Indices: 21790526--21790603 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
21790516 TTAAACGTTG
*
21790526 AGGTTAGCATTTGGGTTGTTGAATATGCCGAACTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
*
21790565 AGGTTAGCATTTGGGTTGTTCAATATGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
21790604 TTAGGGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.37
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
Found at i:21797812 original size:20 final size:20
Alignment explanation
Indices: 21797789--21797829 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
21797779 AAATGTTTAA
21797789 AGAAAAAACAAATAAGTGAC
1 AGAAAAAACAAATAAGTGAC
21797809 AGAAAAAACAAATAAGTGAC
1 AGAAAAAACAAATAAGTGAC
21797829 A
1 A
21797830 TGATATGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.10, G:0.15, T:0.10
Consensus pattern (20 bp):
AGAAAAAACAAATAAGTGAC
Found at i:21798320 original size:27 final size:28
Alignment explanation
Indices: 21798287--21798341 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
21798277 TTGCCGCCAC
* *
21798287 CCTCCATTCCTTCTCCATC-TCACCGCT
1 CCTCCATTACTTCTCCATCGCCACCGCT
*
21798314 CCTCCATTATTTCTCCATCGCCACCGCT
1 CCTCCATTACTTCTCCATCGCCACCGCT
21798342 TATCTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.13, C:0.49, G:0.05, T:0.33
Consensus pattern (28 bp):
CCTCCATTACTTCTCCATCGCCACCGCT
Found at i:21800473 original size:50 final size:50
Alignment explanation
Indices: 21800367--21800559 Score: 199
Period size: 50 Copynumber: 3.7 Consensus size: 50
21800357 GGGAATGAGA
**
21800367 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---A---TATGAGAGG
* *
21800423 TCCCATGTAAGACCATGTCCGGGACATGGCGTTGGCACCGAA-ATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACC-AATATGAGAGG
** * * * **
21800473 TCCCCCGTAAAACCATGTCTGGGACATGACATGGGCACCAATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAATATGAGAGG
* *
21800523 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21800560 GTACAGGAAC
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 2 0.02
50 76 0.66
54 1 0.01
56 35 0.30
57 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAATATGAGAGG
Found at i:21800832 original size:20 final size:20
Alignment explanation
Indices: 21800807--21800855 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
21800797 TGAGTTATTT
21800807 AAGTAAGCAAGGAAGTAAAA
1 AAGTAAGCAAGGAAGTAAAA
* *
21800827 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGGAAGTAAAA
21800847 AAG-AAGCAA
1 AAGTAAGCAA
21800856 AGACCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.59, C:0.04, G:0.27, T:0.10
Consensus pattern (20 bp):
AAGTAAGCAAGGAAGTAAAA
Found at i:21807632 original size:50 final size:50
Alignment explanation
Indices: 21807575--21807768 Score: 178
Period size: 50 Copynumber: 3.9 Consensus size: 50
21807565 TACTGAGGTT
* * *
21807575 ATGAGAGGTCCCATGTAAGACCATGTTTGGCACATGGCGTTGGCACCGAA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAA
* * *
21807625 ATGAGAGGTCCGC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAA
** * * * * *
21807675 ATGAGAACTCTCATGTAAGACCATATCTGGGATATGACATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AA
* * ** * *
21807724 AGGAAACATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21807769 TGTTATTATC
Statistics
Matches: 116, Mismatches: 25, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.32
50 77 0.66
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAA
Found at i:21807995 original size:20 final size:20
Alignment explanation
Indices: 21807970--21808018 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
21807960 TGAGTTATTT
21807970 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
21807990 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
21808010 AAG-AAGCAA
1 AAGTAAGCAA
21808019 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:21818230 original size:41 final size:41
Alignment explanation
Indices: 21818173--21818296 Score: 151
Period size: 41 Copynumber: 3.0 Consensus size: 41
21818163 TGGAGATAGC
* * * **
21818173 GATTCAAGCTTTGTGCCTAGCATGCTTCTTGCTTGTGTATT
1 GATTCAGGCTTTGTGCCTAGCAAGCTTCGTGCCGGTGTATT
* *
21818214 GATTCAGGCTTTGTGCCTAGCAGGTTTCGTGCCGGTGTATT
1 GATTCAGGCTTTGTGCCTAGCAAGCTTCGTGCCGGTGTATT
* *
21818255 G-TATCAGGCCTTGAGCCTAGCAAGCTTCGTGCCGGTGTATT
1 GAT-TCAGGCTTTGTGCCTAGCAAGCTTCGTGCCGGTGTATT
21818296 G
1 G
21818297 TATCAGGTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 1 0.01
41 71 0.99
ACGTcount: A:0.15, C:0.21, G:0.28, T:0.36
Consensus pattern (41 bp):
GATTCAGGCTTTGTGCCTAGCAAGCTTCGTGCCGGTGTATT
Found at i:21827197 original size:45 final size:44
Alignment explanation
Indices: 21827114--21827198 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
21827104 AGATTAATTT
* * **
21827114 AAAAATATATTTTAATTTTAAATTTTTATTATTTATTTATATCA
1 AAAAATATATTTAAAATTTAAATTTGAATTATTTATTTATATCA
* *
21827158 AAAAATATATTTAAAATTTGAATTTGAATTTTATTATTTAT
1 AAAAATATATTTAAAATTTAAATTTGAATTAT-TTATTTAT
21827199 TATGGTTTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 26 0.76
45 8 0.24
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (44 bp):
AAAAATATATTTAAAATTTAAATTTGAATTATTTATTTATATCA
Found at i:21837695 original size:18 final size:18
Alignment explanation
Indices: 21837674--21837708 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21837664 CTCCATTAAA
21837674 AGTTTTTATT-TACAATAT
1 AGTTTTT-TTGTACAATAT
21837692 AGTTTTTTTGTACAATA
1 AGTTTTTTTGTACAATA
21837709 AAAACTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (18 bp):
AGTTTTTTTGTACAATAT
Found at i:21839730 original size:30 final size:31
Alignment explanation
Indices: 21839677--21839740 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
21839667 TTTTAGCTAT
*
21839677 ATTTGACCCTCAACCTATTAAAAAAAGTT-A
1 ATTTGACCATCAACCTATTAAAAAAAGTTGA
* *
21839707 ATTTGACCATCAA-CTTTTCAAAAAGAGTTGA
1 ATTTGACCATCAACCTATT-AAAAAAAGTTGA
21839738 ATT
1 ATT
21839741 GATTTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 4 0.14
30 21 0.72
31 4 0.14
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (31 bp):
ATTTGACCATCAACCTATTAAAAAAAGTTGA
Found at i:21841875 original size:50 final size:53
Alignment explanation
Indices: 21841763--21841908 Score: 163
Period size: 56 Copynumber: 2.8 Consensus size: 53
21841753 ATTTGGTTAA
* * *
21841763 AGAGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCATTAAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CAAG--TATG
* *
21841819 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CAAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACAAGTATG
* * * *
21841869 AGAGGTCCCCTGTAAGACCATATCTGGGATATGACATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
21841909 TAGTACAGAA
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
50 37 0.47
53 3 0.04
55 1 0.01
56 38 0.48
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACAAGTATG
Found at i:21850099 original size:75 final size:75
Alignment explanation
Indices: 21850005--21850162 Score: 199
Period size: 75 Copynumber: 2.1 Consensus size: 75
21849995 ATGCAACGAG
* * * *
21850005 TCCCTCCCCAATCCCAAAGCTATAATTCATATATCATTACATGTTTGGTACCCAACAATGAATGA
1 TCCCTCCCCAATCCCAAAGCTAGAATTCAGATATCATTACATGTTCGGTACCCAACAATGAAAGA
21850070 ATCGTCCTGA
66 ATCGTCCTGA
* * * * * * * *
21850080 TCTCTCCCCAATTCTAAAGCTGGAATTCAGATATCGTTGCATGTTCGGTACCCAATAGTGAAAGA
1 TCCCTCCCCAATCCCAAAGCTAGAATTCAGATATCATTACATGTTCGGTACCCAACAATGAAAGA
*
21850145 ATCGTCCTGG
66 ATCGTCCTGA
21850155 TCCCTCCC
1 TCCCTCCC
21850163 TTTTTGCAAC
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (75 bp):
TCCCTCCCCAATCCCAAAGCTAGAATTCAGATATCATTACATGTTCGGTACCCAACAATGAAAGA
ATCGTCCTGA
Found at i:21851926 original size:22 final size:22
Alignment explanation
Indices: 21851893--21851935 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
21851883 TAGCTATTTC
21851893 TTTTCGTCTTTATCATT-TTAGT
1 TTTTCGTCTTTAT-ATTGTTAGT
21851915 TTTTC-TCTTTTATATTGTTAG
1 TTTTCGTC-TTTATATTGTTAG
21851936 AAGTCTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.14, C:0.12, G:0.09, T:0.65
Consensus pattern (22 bp):
TTTTCGTCTTTATATTGTTAGT
Found at i:21859592 original size:15 final size:15
Alignment explanation
Indices: 21859568--21859598 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21859558 AAATGAGTCC
*
21859568 ATTGCCATTGTAATA
1 ATTGCAATTGTAATA
21859583 ATTGCAATTGTAATA
1 ATTGCAATTGTAATA
21859598 A
1 A
21859599 GGCTAGGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (15 bp):
ATTGCAATTGTAATA
Found at i:21861795 original size:17 final size:17
Alignment explanation
Indices: 21861773--21861806 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21861763 AGCACCAATG
21861773 ACTCTTGACCTTTCATA
1 ACTCTTGACCTTTCATA
21861790 ACTCTTGACCTTTCATA
1 ACTCTTGACCTTTCATA
21861807 TAACATAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.06, T:0.41
Consensus pattern (17 bp):
ACTCTTGACCTTTCATA
Found at i:21874150 original size:20 final size:22
Alignment explanation
Indices: 21874115--21874154 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
21874105 CAATGAATAA
21874115 AAAACTATTAATTTTTTTTAAT
1 AAAACTATTAATTTTTTTTAAT
21874137 AAAA-TATT-ATTTTTTTTA
1 AAAACTATTAATTTTTTTTA
21874155 TTTTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
AAAACTATTAATTTTTTTTAAT
Found at i:21874275 original size:27 final size:27
Alignment explanation
Indices: 21874245--21874333 Score: 142
Period size: 27 Copynumber: 3.3 Consensus size: 27
21874235 CCTGTCAGGT
* **
21874245 AGGCGCCACTAATTGTGCCTCATAGGG
1 AGGCGCCATTAAAAGTGCCTCATAGGG
21874272 AGGCGCCATTAAAAGTGCCTCATAGGG
1 AGGCGCCATTAAAAGTGCCTCATAGGG
*
21874299 AGGCGCCATTAAAAGTGCCTTATAGGG
1 AGGCGCCATTAAAAGTGCCTCATAGGG
21874326 AGGCGCCA
1 AGGCGCCA
21874334 ATGGGTAATT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.19
Consensus pattern (27 bp):
AGGCGCCATTAAAAGTGCCTCATAGGG
Found at i:21874371 original size:21 final size:21
Alignment explanation
Indices: 21874342--21874550 Score: 113
Period size: 21 Copynumber: 10.2 Consensus size: 21
21874332 CAATGGGTAA
21874342 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
*
21874363 TTTTATATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* * * *
21874384 ATTTTCTAATTAATTTTGTAGTT
1 -TTTTGT-ATGAATATTGTAATT
*
21874407 ATAGTTT-T-TG-AT-TAGT-A--
1 -T--TTTGTATGAATATTGTAATT
21874424 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* * *
21874445 ATTTTATAATAAATTTTGT-ATT
1 -TTTTGT-ATGAATATTGTAATT
* * * * *
21874467 TATAGTTTTGGAT-TAGT-A--
1 TTTTG-TATGAATATTGTAATT
21874485 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
21874506 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
21874525 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
21874546 ATTTT
1 -TTTT
21874551 ATAATTAATT
Statistics
Matches: 143, Mismatches: 24, Indels: 41
0.69 0.12 0.20
Matches are distributed among these distances:
14 3 0.02
15 1 0.01
16 3 0.02
17 7 0.05
18 9 0.06
19 21 0.15
20 7 0.05
21 46 0.32
22 19 0.13
23 23 0.16
24 1 0.01
25 3 0.02
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:21874463 original size:61 final size:61
Alignment explanation
Indices: 21874363--21874509 Score: 242
Period size: 61 Copynumber: 2.4 Consensus size: 61
21874353 TATTGTAATT
* * * *
21874363 TTTTATATGAATATTGTAATTATTTTCTAATTAATTTTGTAGTTATAGTTTTTGATTAGTA
1 TTTTGTATGAATATTGTAATTATTTTATAATAAATTTTGTAGTTATAGTTTTGGATTAGTA
*
21874424 TTTTGTATGAATATTGTAATTATTTTATAATAAATTTTGTATTTATAGTTTTGGATTAGTA
1 TTTTGTATGAATATTGTAATTATTTTATAATAAATTTTGTAGTTATAGTTTTGGATTAGTA
21874485 TTTTGTATGAATATTGTAATT-TTTT
1 TTTTGTATGAATATTGTAATTATTTT
21874510 GTATGAATAT
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
60 4 0.05
61 77 0.95
ACGTcount: A:0.29, C:0.01, G:0.12, T:0.58
Consensus pattern (61 bp):
TTTTGTATGAATATTGTAATTATTTTATAATAAATTTTGTAGTTATAGTTTTGGATTAGTA
Found at i:21874530 original size:19 final size:19
Alignment explanation
Indices: 21874484--21874545 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
21874474 TTGGATTAGT
21874484 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
21874503 ATTTTTTGTATGAATATTGTA
1 A--TTTTGTATGAATATTGTA
21874524 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
21874543 ATT
1 ATT
21874546 ATTTTATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 22 0.54
21 19 0.46
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.55
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:21874606 original size:60 final size:60
Alignment explanation
Indices: 21874541--21874656 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 60
21874531 ATGAATATTG
* * * * * *
21874541 TAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGTTTC
1 TAATTATTTAAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTC
21874601 TAATTATTTAAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
1 TAATTATTTAAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
21874657 ATTAGTTTAG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (60 bp):
TAATTATTTAAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGTTTC
Found at i:21874814 original size:15 final size:16
Alignment explanation
Indices: 21874778--21874814 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
21874768 CTCATTTAAT
*
21874778 TTTTATATAATGTAAC
1 TTTTATATAAAGTAAC
21874794 TTTTATATAAAGTAA-
1 TTTTATATAAAGTAAC
21874809 TTTTAT
1 TTTTAT
21874815 TTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (16 bp):
TTTTATATAAAGTAAC
Found at i:21886498 original size:9 final size:10
Alignment explanation
Indices: 21886468--21886501 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
21886458 AGAGTTGTAA
21886468 TATATTTTTCT
1 TATA-TTTTCT
21886479 TATATTTTCT
1 TATATTTTCT
21886489 TATA-TTTCT
1 TATATTTTCT
21886498 TATA
1 TATA
21886502 AAAAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
10 10 0.43
11 4 0.17
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (10 bp):
TATATTTTCT
Found at i:21894084 original size:16 final size:16
Alignment explanation
Indices: 21894063--21894097 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
21894053 TCAAAGGGCA
21894063 ATGGTCACCCTGTTTC
1 ATGGTCACCCTGTTTC
21894079 ATGGTCACCCTGTTTC
1 ATGGTCACCCTGTTTC
21894095 ATG
1 ATG
21894098 ACATGATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.29, G:0.20, T:0.37
Consensus pattern (16 bp):
ATGGTCACCCTGTTTC
Found at i:21898396 original size:54 final size:51
Alignment explanation
Indices: 21898321--21898538 Score: 121
Period size: 44 Copynumber: 4.5 Consensus size: 51
21898311 GAAATAAAGG
**
21898321 ATCTTATCTCTCTAAAG-TTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAA
1 ATCTTATCTC-CTTGAGATTACAGTAGAG-AGATCG-A-CAGATTGAAGCCAGAA
* *
21898375 ATCTTATCTCCTTGAGATTACAGT---GA-A--G-CAGATTGAAGCTAGTA
1 ATCTTATCTCCTTGAGATTACAGTAGAGAGATCGACAGATTGAAGCCAGAA
* * * * *
21898419 ATCCTATCTCCCTGAGATTACAGTGGACG-GATTGA-A-A-T-AA---AG-G
1 ATCTTATCTCCTTGAGATTACAGTAGA-GAGATCGACAGATTGAAGCCAGAA
**
21898462 ATCTTATCTCTCTAAAG-TTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAA
1 ATCTTATCTC-CTTGAGATTACAGTAGAG-AGATCG-A-CAGATTGAAGCCAGAA
*
21898516 ATCTTATCTCCCTGAGATTACAG
1 ATCTTATCTCCTTGAGATTACAG
21898539 CGGAGCAGAT
Statistics
Matches: 124, Mismatches: 17, Indels: 46
0.66 0.09 0.25
Matches are distributed among these distances:
42 1 0.01
43 18 0.15
44 45 0.36
45 1 0.01
47 4 0.03
48 4 0.03
49 3 0.02
50 5 0.04
51 1 0.01
53 9 0.07
54 33 0.27
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (51 bp):
ATCTTATCTCCTTGAGATTACAGTAGAGAGATCGACAGATTGAAGCCAGAA
Found at i:21898424 original size:141 final size:141
Alignment explanation
Indices: 21898170--21898691 Score: 855
Period size: 141 Copynumber: 3.7 Consensus size: 141
21898160 TTCCTAATCG
* * *
21898170 GAAATAAAGGATCTTATCTCTCTGAAGTTACAGTGGAGTAGATCGCATCAGATTGAAGCCAGAAT
1 GAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAA
* *
21898235 TTTTATCTCCCTGAGATTACAGCGGAGCAGACTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
66 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
21898300 GTGGACGGATT
131 GTGGACGGATT
21898311 GAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAA
1 GAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAA
* * *
21898376 TCTTATCTCCTTGAGATTACAGTGAAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
66 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
21898441 GTGGACGGATT
131 GTGGACGGATT
21898452 GAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAA
1 GAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAA
* * *
21898517 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTACCTCCCTGAGATTATA
66 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
*
21898582 GTGGAGCAGATT
131 GTGGA-CGGATT
* * * * *
21898594 AAAATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGTAA
1 GAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAA
* * *
21898659 TCCTATCTCCCTGAGATTACAGTGGAGCGGATT
66 TCTTATCTCCCTGAGATTACAGCGGAGCAGATT
21898692 AAAGTAAAGG
Statistics
Matches: 357, Mismatches: 23, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
141 262 0.73
142 95 0.27
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (141 bp):
GAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAA
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGGACGGATT
Found at i:21898427 original size:44 final size:44
Alignment explanation
Indices: 21898359--21898593 Score: 145
Period size: 44 Copynumber: 5.1 Consensus size: 44
21898349 TAGATCGCAT
* *
21898359 CAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGTGAAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGTGAAG
* * *
21898403 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGA-
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGTGAAG
* ** * * *
21898446 CGGATTGAA-ATA-AAGGATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCCAGAA--ATCCTATCTCCCTGAGA-TTACAGT---G-A-A--G
* * *
21898497 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 ---CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGTGAAG
* * * * * *
21898544 CAGATTAAAGCTAGTAATCCTACCTCCCTGAGATTATAGTGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGTGAAG
21898588 CAGATT
1 CAGATT
21898594 AAAATAAAGG
Statistics
Matches: 148, Mismatches: 26, Indels: 34
0.71 0.12 0.16
Matches are distributed among these distances:
41 1 0.01
42 4 0.03
43 26 0.18
44 81 0.55
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
51 1 0.01
54 26 0.18
55 3 0.02
56 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGTGAAG
Found at i:21898720 original size:98 final size:98
Alignment explanation
Indices: 21898544--21898742 Score: 310
Period size: 98 Copynumber: 2.0 Consensus size: 98
21898534 TACAGCGGAG
*
21898544 CAGATTAAAGCTAGTAATCCTACCTCCCTGAGATTATAGTGGAGCAGATTAAAATAAAGGATCTT
1 CAGATTAAAGCTAGTAATCCTACCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
* *
21898609 ATCTCTTTGAAGTTACAGTAGAGTAGATCGCAT
66 ATCTCTTTAAAGTTACAATAGAGTAGATCGCAT
* * * *
21898642 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGTAAAGGATCTT
1 CAGATTAAAGCTAGTAATCCTACCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
*
21898707 ATCT-TTCTAAAGTTACAATTGAGTAGATCGCAT
66 ATCTCTT-TAAAGTTACAATAGAGTAGATCGCAT
21898740 CAG
1 CAG
21898743 GTCTTATCTC
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
97 2 0.02
98 90 0.98
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (98 bp):
CAGATTAAAGCTAGTAATCCTACCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
ATCTCTTTAAAGTTACAATAGAGTAGATCGCAT
Found at i:21898892 original size:50 final size:50
Alignment explanation
Indices: 21898820--21898950 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 50
21898810 AGTGGAGCAA
** * * * *
21898820 ATTAAAGCCACATCGGTGAATCTTCCTTCCCCGATACTACAGTTAAAAAG
1 ATTAAAGCCACAAAGGCGAATCTTACTTCCCCGACACTACAGTCAAAAAG
* * * * *
21898870 ATTAAAGCCACAAAGGCAAATCTTACTTCCCTGGCAGTGCAGTCAAAAAG
1 ATTAAAGCCACAAAGGCGAATCTTACTTCCCCGACACTACAGTCAAAAAG
* * *
21898920 ATTGAAGCTACAATGGCGAATCTTACTTCCC
1 ATTAAAGCCACAAAGGCGAATCTTACTTCCC
21898951 AAAAGTTGCG
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (50 bp):
ATTAAAGCCACAAAGGCGAATCTTACTTCCCCGACACTACAGTCAAAAAG
Found at i:21912726 original size:50 final size:50
Alignment explanation
Indices: 21912609--21912784 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 50
21912599 TGCCAAAGTT
* * * * *
21912609 ATGTCCCAGACATAGTCTTACATGGGATGTT-TCTTGTA-CTGCCAATGTC
1 ATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAGGTGCCAATGCC
* * * *
21912658 ATATCCCAAATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGGTGCCAATGCC
** ** * * *
21912708 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGGTGCCAATGCC
21912758 ATGTCCCAGACATGGTCTTACATGGGA
1 ATGTCCCAGACATGGTCTTACATGGGA
21912785 CCTCGGATAA
Statistics
Matches: 103, Mismatches: 22, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
48 3 0.03
49 28 0.27
50 72 0.70
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGGTGCCAATGCC
Found at i:21915679 original size:20 final size:20
Alignment explanation
Indices: 21915650--21915697 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
21915640 ATTATTTTAA
*
21915650 AATTATTTTTGACCCA-AATT
1 AATTAATTTT-ACCCATAATT
*
21915670 AATTAATTTTACCTATAATT
1 AATTAATTTTACCCATAATT
21915690 AATTAATT
1 AATTAATT
21915698 ACTTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (20 bp):
AATTAATTTTACCCATAATT
Found at i:21920617 original size:25 final size:25
Alignment explanation
Indices: 21920576--21920669 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 25
21920566 AGCTCATATG
* *
21920576 AGCTTACCGA-TACTCAGCTCGCATA
1 AGCTTACC-ATTATTCAGCTCGCAGA
** * *
21920601 AGCTTACTTTTATTCAGCTCGGAGG
1 AGCTTACCATTATTCAGCTCGCAGA
* *
21920626 AGCTTACCATTATTCAGCTCGGAGG
1 AGCTTACCATTATTCAGCTCGCAGA
* *
21920651 ACCTTACCATT-TACAGCTC
1 AGCTTACCATTATTCAGCTC
21920670 ATAAGAGCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
24 7 0.12
25 51 0.88
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (25 bp):
AGCTTACCATTATTCAGCTCGCAGA
Found at i:21921992 original size:66 final size:66
Alignment explanation
Indices: 21921886--21922009 Score: 185
Period size: 66 Copynumber: 1.9 Consensus size: 66
21921876 ATCAGACAGT
* * * *
21921886 TGTCAACTGTGGCGACAATTTTGAATGCCATCTAGAATTAACTCATGCAACGACATTACAGATAT
1 TGTCAACTGTGGCGACAATTTTGAACGCAATCTAGAATTAAATCATGCAACGAAATTACAGATAT
21921951 C
66 C
* * *
21921952 TGTCAACTGTGGCGACAATTTTGGACGCAATCTGGAATTAAATCATGTAACGAAATTA
1 TGTCAACTGTGGCGACAATTTTGAACGCAATCTAGAATTAAATCATGCAACGAAATTA
21922010 GTGCAGAAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 51 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (66 bp):
TGTCAACTGTGGCGACAATTTTGAACGCAATCTAGAATTAAATCATGCAACGAAATTACAGATAT
C
Found at i:21922595 original size:20 final size:20
Alignment explanation
Indices: 21922562--21922605 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
21922552 TAATGAGAGT
* *
21922562 AAATGCAATGGAAAGTAATA
1 AAATGCAATGGAAAATAAGA
21922582 AAATGCAAAT-GAAAATAAGA
1 AAATGC-AATGGAAAATAAGA
21922602 AAAT
1 AAAT
21922606 TTGAAAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.61, C:0.05, G:0.16, T:0.18
Consensus pattern (20 bp):
AAATGCAATGGAAAATAAGA
Found at i:21923562 original size:15 final size:15
Alignment explanation
Indices: 21923542--21923570 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21923532 TCATCCACAC
21923542 GGGTTGCAAGTCAAA
1 GGGTTGCAAGTCAAA
21923557 GGGTTGCAAGTCAA
1 GGGTTGCAAGTCAA
21923571 GCTGTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (15 bp):
GGGTTGCAAGTCAAA
Found at i:21931001 original size:19 final size:20
Alignment explanation
Indices: 21930970--21931026 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 20
21930960 AAGACTAAGA
21930970 ACCATTCCATTTACTTAGTT
1 ACCATTCCATTTACTTAGTT
*
21930990 ACCATT-CATTTACTTACTT
1 ACCATTCCATTTACTTAGTT
*
21931009 TCCATTCCATTTACTTAG
1 ACCATTCCATTTACTTAG
21931027 CATAAACTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.25, C:0.26, G:0.04, T:0.46
Consensus pattern (20 bp):
ACCATTCCATTTACTTAGTT
Found at i:21932831 original size:56 final size:51
Alignment explanation
Indices: 21932769--21932945 Score: 178
Period size: 50 Copynumber: 3.4 Consensus size: 51
21932759 AATGAGATCT
* * *
21932769 CATGTAAGAACATGTCTGGGACATGGCATTGGCATTACTGATGTTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATAGGCA--ACCGA-G--ATGAGAGGTCC
* *
21932825 CATGTAAGACCATGTTTAGGACATGGCATAGGC-ACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATAGGCAACCGAGATGAGAGGTCC
* * * * ** *
21932875 CACGTAAGACCATGTCTGGGACATGTCATGGGC-ACCGATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATAGGCAACCGAGATGAGAGGTCC
*
21932925 CATGTAAGACCATATCTGGGA
1 CATGTAAGACCATGTCTGGGA
21932946 TATGACATTT
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
50 71 0.68
52 1 0.01
53 4 0.04
56 29 0.28
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (51 bp):
CATGTAAGACCATGTCTGGGACATGGCATAGGCAACCGAGATGAGAGGTCC
Found at i:21932943 original size:50 final size:50
Alignment explanation
Indices: 21932769--21933000 Score: 173
Period size: 50 Copynumber: 4.5 Consensus size: 50
21932759 AATGAGATCT
* * * **
21932769 CATGTAAGAACATGTCTGGGACATGGCATTGGCATTACTGATGTTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATAGGC---ACCGA-G--ATGAGAACTCC
* * **
21932825 CATGTAAGACCATGTTTAGGACATGGCATAGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAACTCC
* * * * *
21932875 CACGTAAGACCATGTCTGGGACATGTCATGGGCACCGATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAACTCC
* * * ** * * *
21932925 CATGTAAGACCATATCTGGGATATGACATTTGTA--GTACAGGA-AACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATAGGCACCG-AGATGAGAAC-TCC
21932974 CATGTAAGACCATGTCTGGGACATGGC
1 CATGTAAGACCATGTCTGGGACATGGC
21933001 TTTGGCATGT
Statistics
Matches: 147, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
48 4 0.03
49 30 0.20
50 79 0.54
52 1 0.01
53 4 0.03
56 29 0.20
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAACTCC
Found at i:21933226 original size:12 final size:12
Alignment explanation
Indices: 21933209--21933247 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21933199 ATGAGTTATT
21933209 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
21933221 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
21933233 TAAGTGAGTAAG
1 TAAGTAAGCAAG
21933245 TAA
1 TAA
21933248 AGAAGAAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:21937217 original size:50 final size:51
Alignment explanation
Indices: 21937106--21937352 Score: 261
Period size: 50 Copynumber: 4.8 Consensus size: 51
21937096 ATTTAAGTAA
*
21937106 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAAGTTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAAG--ATG
* *
21937162 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAAGATG
* ** * *
21937212 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCTTTGGCACCG-ATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAAGATG
* * * * *
21937262 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAAGATG
* * *
21937311 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21937353 TGTTATTATC
Statistics
Matches: 169, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 39 0.23
50 85 0.50
52 2 0.01
53 1 0.01
55 1 0.01
56 40 0.24
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (51 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAAGATG
Found at i:21937728 original size:170 final size:170
Alignment explanation
Indices: 21937446--21937786 Score: 673
Period size: 170 Copynumber: 2.0 Consensus size: 170
21937436 AGTTCAGGTA
21937446 AAAGCATAAATAGCAAATTCAGGTGAGTTATAAGAGTTAAGAACATATTATGTTATCAATTGAGA
1 AAAGCATAAATAGCAAATTCAGGTGAGTTATAAGAGTTAAGAACATATTATGTTATCAATTGAGA
21937511 ACCAACATTTCAGCAAGAGAAGAATATGTTATAATCATGAGTTATCTAAGTAAACAAGTAAGTGA
66 ACCAACATTTCAGCAAGAGAAGAATATGTTATAATCATGAGTTATCTAAGTAAACAAGTAAGTGA
21937576 ACGAGTAAGAGATTAAGTAAAGAGGAAATTAAAGATCATG
131 ACGAGTAAGAGATTAAGTAAAGAGGAAATTAAAGATCATG
21937616 AAAGCATAAATAGCAAATTCAGGTGAGTTATAAGAGTTAAGAACATATTATGTTATCAATTGAGA
1 AAAGCATAAATAGCAAATTCAGGTGAGTTATAAGAGTTAAGAACATATTATGTTATCAATTGAGA
21937681 ACCAACATTTCAGCAAGAGAAGAATATGTTATAATCATGAGTTATCTAAGTAAACAAGTAAGTGA
66 ACCAACATTTCAGCAAGAGAAGAATATGTTATAATCATGAGTTATCTAAGTAAACAAGTAAGTGA
*
21937746 ACGAGTAAGAGATTAAGTAAAGAGGAAATTAGAGATCATG
131 ACGAGTAAGAGATTAAGTAAAGAGGAAATTAAAGATCATG
21937786 A
1 A
21937787 CACTTGAGTA
Statistics
Matches: 170, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.26
Consensus pattern (170 bp):
AAAGCATAAATAGCAAATTCAGGTGAGTTATAAGAGTTAAGAACATATTATGTTATCAATTGAGA
ACCAACATTTCAGCAAGAGAAGAATATGTTATAATCATGAGTTATCTAAGTAAACAAGTAAGTGA
ACGAGTAAGAGATTAAGTAAAGAGGAAATTAAAGATCATG
Found at i:21940542 original size:51 final size:49
Alignment explanation
Indices: 21940418--21940609 Score: 197
Period size: 50 Copynumber: 3.8 Consensus size: 49
21940408 ATTATTATCA
* * * * * *
21940418 TTCGATACACATAGTAGCCTTCAAATAGTACTACACAGGTGATCAAATTT
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CAAAATC
* * *
21940468 TTCGGTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACC
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CAAAATC
* *
21940518 TTCCGGTACACATAGTAGCCTGCACATAGTACTACA-ATGTGACAATTATC
1 TT-CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACAA-AATC
* * * *
21940568 TATCGATACACGTAGTAGCTTGCACTTAGTACTACACACGTG
1 T-TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTG
21940610 TTTATAGGCA
Statistics
Matches: 118, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
49 3 0.03
50 79 0.67
51 36 0.31
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (49 bp):
TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACAAAATC
Found at i:21940580 original size:101 final size:101
Alignment explanation
Indices: 21940423--21940609 Score: 263
Period size: 101 Copynumber: 1.9 Consensus size: 101
21940413 TATCATTCGA
* * *
21940423 TACACATAGTAGCCTTCAAATAGTACTACACAGGTGATCAAATTTTTCGGTTCACGTAGTAGCCT
1 TACACATAGTAGCCTGCAAATAGTACTACACAGGTGATCAAATTTTTCGATACACGTAGTAGCCT
21940488 GCACATAGTACTACACACGTGACCAAAACCTTCCGG
66 GCACATAGTACTACACACGTGACCAAAACCTTCCGG
* *
21940524 TACACATAGTAGCCTGCACATAGTACTACA-ATGTGA-C-AATTATCTATCGATACACGTAGTAG
1 TACACATAGTAGCCTGCAAATAGTACTACACAGGTGATCAAATT-T-T-TCGATACACGTAGTAG
* *
21940586 CTTGCACTTAGTACTACACACGTG
63 CCTGCACATAGTACTACACACGTG
21940610 TTTATAGGCA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
98 4 0.05
99 2 0.03
100 6 0.08
101 64 0.84
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (101 bp):
TACACATAGTAGCCTGCAAATAGTACTACACAGGTGATCAAATTTTTCGATACACGTAGTAGCCT
GCACATAGTACTACACACGTGACCAAAACCTTCCGG
Found at i:21948158 original size:51 final size:51
Alignment explanation
Indices: 21948028--21948176 Score: 169
Period size: 50 Copynumber: 2.9 Consensus size: 51
21948018 CCGTGTAATT
* * * * *
21948028 ATTATC-ATTCGATGCATGTAGTAGCCTTCACATAGTACTACACACGTGATC
1 ATTATCTA-TCGATACACGTAGTAGCCTGCACATAGTACTACACATGTGACC
* * * *
21948079 A--AACTTTCCAGTTCACGTAGTAGCCTGCACATAGTACTACACATGTGACC
1 ATTATCTATCGA-TACACGTAGTAGCCTGCACATAGTACTACACATGTGACC
*
21948129 ATTATCTATCGATACACGTAGTAGCCTGCACTTAGTACTACACATGTG
1 ATTATCTATCGATACACGTAGTAGCCTGCACATAGTACTACACATGTG
21948177 TTTATAGACA
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
49 5 0.06
50 35 0.43
51 35 0.43
52 6 0.07
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (51 bp):
ATTATCTATCGATACACGTAGTAGCCTGCACATAGTACTACACATGTGACC
Found at i:21953225 original size:14 final size:15
Alignment explanation
Indices: 21953201--21953229 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21953191 TGCTATGCTT
21953201 AATGAAATGTTTAGA
1 AATGAAATGTTTAGA
21953216 AATG-AATGTTTAGA
1 AATGAAATGTTTAGA
21953230 TGTTATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (15 bp):
AATGAAATGTTTAGA
Found at i:21958425 original size:27 final size:27
Alignment explanation
Indices: 21958374--21958648 Score: 250
Period size: 27 Copynumber: 10.3 Consensus size: 27
21958364 TGCTAATTGT
* *
21958374 GGGTAAAATGA-TCGAAATACGCTCGAA
1 GGGTAAAATTACT-GAAATACCCTCGAA
21958401 GGGTAAAATTACT-AAATTACCCTCGAA
1 GGGTAAAATTACTGAAA-TACCCTCGAA
*
21958428 GGGTAAAATTA-TCGAAATA---TCGAT
1 GGGTAAAATTACT-GAAATACCCTCGAA
* ** *
21958452 GGCTAAAATTACTGAAATACATTCTAA
1 GGGTAAAATTACTGAAATACCCTCGAA
* *
21958479 GTGTAAAAATTA-TCAAAATACCCTCGAA
1 GGGT-AAAATTACT-GAAATACCCTCGAA
*
21958507 GGGTAAAATTATTGAAATACCCTCGAA
1 GGGTAAAATTACTGAAATACCCTCGAA
** *
21958534 GGGTAAAATTACCAAAATACCCACGAA
1 GGGTAAAATTACTGAAATACCCTCGAA
*
21958561 GGGTAAAATTA-TCAAAATACCCTCGAA
1 GGGTAAAATTACT-GAAATACCCTCGAA
21958588 GGGTAAAATTACTGAAATACCACT--AA
1 GGGTAAAATTACTGAAATACC-CTCGAA
* *
21958614 GGGTAAAATTA-TCGTAATACCC-CTAA
1 GGGTAAAATTACT-GAAATACCCTCGAA
21958640 GGGTAAAAT
1 GGGTAAAAT
21958649 GATCTTTATA
Statistics
Matches: 209, Mismatches: 22, Indels: 35
0.79 0.08 0.13
Matches are distributed among these distances:
24 20 0.10
25 3 0.01
26 35 0.17
27 123 0.59
28 28 0.13
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (27 bp):
GGGTAAAATTACTGAAATACCCTCGAA
Found at i:21958442 original size:54 final size:53
Alignment explanation
Indices: 21958374--21958648 Score: 276
Period size: 54 Copynumber: 5.2 Consensus size: 53
21958364 TGCTAATTGT
*
21958374 GGGTAAAATGATCGAAATACGCTCGAAGGGTAAAATTACT-AAATTACCCTCGAA
1 GGGTAAAATTATCGAAATAC-CTCGAAGGGTAAAATTACTGAAA-TACCCTCGAA
* * ** *
21958428 GGGTAAAATTATCGAAATA--TCGATGGCTAAAATTACTGAAATACATTCTAA
1 GGGTAAAATTATCGAAATACCTCGAAGGGTAAAATTACTGAAATACCCTCGAA
* * *
21958479 GTGTAAAAATTATCAAAATACCCTCGAAGGGTAAAATTATTGAAATACCCTCGAA
1 GGGT-AAAATTATCGAAATA-CCTCGAAGGGTAAAATTACTGAAATACCCTCGAA
* * * *
21958534 GGGTAAAATTACCAAAATACCCACGAAGGGTAAAATTA-TCAAAATACCCTCGAA
1 GGGTAAAATTATCGAAATA-CCTCGAAGGGTAAAATTACT-GAAATACCCTCGAA
* * * *
21958588 GGGTAAAATTA-CTGAAATACCACTAAGGGTAAAATTA-TCGTAATACCC-CTAA
1 GGGTAAAATTATC-GAAATACCTCGAAGGGTAAAATTACT-GAAATACCCTCGAA
21958640 GGGTAAAAT
1 GGGTAAAAT
21958649 GATCTTTATA
Statistics
Matches: 191, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
51 26 0.14
52 29 0.15
53 28 0.15
54 79 0.41
55 29 0.15
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (53 bp):
GGGTAAAATTATCGAAATACCTCGAAGGGTAAAATTACTGAAATACCCTCGAA
Found at i:21958642 original size:133 final size:132
Alignment explanation
Indices: 21958374--21958652 Score: 375
Period size: 133 Copynumber: 2.1 Consensus size: 132
21958364 TGCTAATTGT
* * * *
21958374 GGGTAAAATGATCGAAATACGCTCGAAGGGTAAAATTACTAAATTACCCTCGAAGGGTAAAATTA
1 GGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATTACCAAAATACCCACGAAGGGTAAAATTA
* * *
21958439 TCGAAATATCGATGGCTAAAATTACTGAAATACATTCTAAGTGTAAAAATTATCAAAATACCCTC
66 TCAAAATATCGAAGGCTAAAATTACTGAAATACA-TCTAAGGGTAAAAATTATCAAAATACCCTC
21958504 GAA
130 GAA
* *
21958507 GGGTAAAATTATTGAAATACCCTCGAAGGGTAAAATTACCAAAATACCCACGAAGGGTAAAATTA
1 GGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATTACCAAAATACCCACGAAGGGTAAAATTA
* **
21958572 TCAAAATACCCTCGAAGGGTAAAATTACTGAAATACCA-CTAAGGGT-AAAATTATCGTAATACC
66 TCAAAATA---TCGAAGGCTAAAATTACTGAAATA-CATCTAAGGGTAAAAATTATCAAAATACC
*
21958635 C-CTAA
127 CTCGAA
21958640 GGGTAAAATGATC
1 GGGTAAAATGATC
21958653 TTTATACCCC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
133 80 0.63
134 16 0.13
135 7 0.06
136 22 0.17
137 2 0.02
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (132 bp):
GGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATTACCAAAATACCCACGAAGGGTAAAATTA
TCAAAATATCGAAGGCTAAAATTACTGAAATACATCTAAGGGTAAAAATTATCAAAATACCCTCG
AA
Found at i:21958659 original size:26 final size:26
Alignment explanation
Indices: 21958495--21958677 Score: 109
Period size: 27 Copynumber: 6.8 Consensus size: 26
21958485 AAATTATCAA
* * * *
21958495 AATACCCTCGAAGGGTAAAATTATTGA
1 AATACCC-CTAAGGGTAAAATGATCGT
* * * **
21958522 AATACCCTCGAAGGGTAAAATTACCAA
1 AATACCC-CTAAGGGTAAAATGATCGT
* * **
21958549 AATACCCACGAAGGGTAAAATTATCAA
1 AATACCC-CTAAGGGTAAAATGATCGT
* * *
21958576 AATACCCTCGAAGGGTAAAATTA-CTGA
1 AATACCC-CTAAGGGTAAAATGATC-GT
* *
21958603 AATACCACTAAGGGTAAAATTATCGT
1 AATACCCCTAAGGGTAAAATGATCGT
*
21958629 AATACCCCTAAGGGTAAAATGATCTT
1 AATACCCCTAAGGGTAAAATGATCGT
*
21958655 TATACCCCT-AGGAGATAAAATGA
1 AATACCCCTAAGG-G-TAAAATGA
21958678 CTGTTATGGC
Statistics
Matches: 138, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
25 3 0.02
26 48 0.35
27 87 0.63
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (26 bp):
AATACCCCTAAGGGTAAAATGATCGT
Found at i:21958684 original size:27 final size:26
Alignment explanation
Indices: 21958604--21958677 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
21958594 AATTACTGAA
* * * *
21958604 ATACCACTAAGGGTAAAATTATCGTA
1 ATACCCCTAAGGGTAAAATGATCTTT
21958630 ATACCCCTAAGGGTAAAATGATCTTT
1 ATACCCCTAAGGGTAAAATGATCTTT
21958656 ATACCCCT-AGGAGATAAAATGA
1 ATACCCCTAAGG-G-TAAAATGA
21958678 CTGTTATGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 3 0.07
26 31 0.74
27 8 0.19
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.26
Consensus pattern (26 bp):
ATACCCCTAAGGGTAAAATGATCTTT
Found at i:21961310 original size:26 final size:26
Alignment explanation
Indices: 21961261--21961310 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
21961251 CGACGTATAA
* *
21961261 TATTACTGGCAACTTTGCTGCGATTC
1 TATTACTGGCAACTTTACTACGATTC
**
21961287 TATTACTGGCAGTTTTACTACGAT
1 TATTACTGGCAACTTTACTACGAT
21961311 ATTGGTGTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (26 bp):
TATTACTGGCAACTTTACTACGATTC
Found at i:21961445 original size:28 final size:27
Alignment explanation
Indices: 21961405--21961457 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
21961395 ATGATATTGT
*
21961405 ATTGGGTTAAGGCCCACACTGCTACTAA
1 ATTGGGCTAAGGCCCACACTG-TACTAA
*
21961433 ATTGGGCTAAGGCCCTCACTGTACT
1 ATTGGGCTAAGGCCCACACTGTACT
21961458 GTCACTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (27 bp):
ATTGGGCTAAGGCCCACACTGTACTAA
Found at i:21968521 original size:23 final size:22
Alignment explanation
Indices: 21968469--21968521 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
21968459 TCCACGTCTT
*
21968469 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
21968491 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
21968514 TTTCTTTT
1 TTTCTTTT
21968522 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:21973123 original size:27 final size:27
Alignment explanation
Indices: 21973085--21973440 Score: 411
Period size: 27 Copynumber: 13.2 Consensus size: 27
21973075 GAATCATGGA
*
21973085 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATTACTGAAATACCCTCGAAGGG
*
21973112 AAAAATTACTGAAATACCCTCGAAGGG
1 TAAAATTACTGAAATACCCTCGAAGGG
*
21973139 T-AAATTACTGAAATACCCTCAAAGGG
1 TAAAATTACTGAAATACCCTCGAAGGG
** *
21973165 TAAAATTACAAAAATACCCTCAAAGGG
1 TAAAATTACTGAAATACCCTCGAAGGG
* *
21973192 TAAAATTACTAAAATACCCTTGAAGGG
1 TAAAATTACTGAAATACCCTCGAAGGG
*
21973219 TAAAATTA-TCGAAATACCCTTGAAGGG
1 TAAAATTACT-GAAATACCCTCGAAGGG
* *
21973246 TAGAAATTACCGAAATACCCTCAAAGGG
1 TA-AAATTACTGAAATACCCTCGAAGGG
*
21973274 TAAAGTTA-TCGAAATACCCTCGAAGGG
1 TAAAATTACT-GAAATACCCTCGAAGGG
* * *
21973301 TAAAATT-GTCGAAATACTCTTGAAGGG
1 TAAAATTACT-GAAATACCCTCGAAGGG
* ** *
21973328 TAAAATGACCAAAATACCCTCGAAAGG
1 TAAAATTACTGAAATACCCTCGAAGGG
21973355 TAAAATTA-TCGAAATACCCTCGAAGGG
1 TAAAATTACT-GAAATACCCTCGAAGGG
*
21973382 TAAAATTA-TCGAAATACACTCGAAGGG
1 TAAAATTACT-GAAATACCCTCGAAGGG
* *
21973409 TAAAATTACCGAAATACCC-CTAAGGG
1 TAAAATTACTGAAATACCCTCGAAGGG
21973435 TAAAAT
1 TAAAAT
21973441 GATCTTTATA
Statistics
Matches: 286, Mismatches: 34, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
26 38 0.13
27 225 0.79
28 23 0.08
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGAAGGG
Found at i:21977509 original size:19 final size:19
Alignment explanation
Indices: 21977478--21977515 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21977468 AAAAAATCGG
*
21977478 TAAATAATATTTTATAAAA
1 TAAATAATATTTTAGAAAA
21977497 TAAA-AATATTTTTAGAAAA
1 TAAATAATA-TTTTAGAAAA
21977516 ATTAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
TAAATAATATTTTAGAAAA
Found at i:21984614 original size:44 final size:44
Alignment explanation
Indices: 21984548--21984838 Score: 158
Period size: 44 Copynumber: 6.7 Consensus size: 44
21984538 CCATCTTCGA
* **
21984548 TCTGCTCCACTACTGCTT-AGGGAGATAAGATTTGCTTACTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTTACTTAG
* * * * **
21984591 TCTGCTCCACTACAACTTCAGGGAGACAAGACTAG---AC-GCG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTTACTTAG
* * * * *
21984631 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGAGATT--TTAA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-TGCTTACTTAG
* * * * * * ** *
21984675 TCCGCTCAAGTGCGACTTCAGGGAGA-CAGAATTG-TCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-TAC-TTAG
* *
21984719 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGC-CATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTTA-CTT-AG
* * *
21984764 TCTAC-CTCACTGCAAC-TCCGGAAGGATAAGATTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTTGCTTACTTAG
21984808 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
21984839 CTAGATGTGA
Statistics
Matches: 183, Mismatches: 43, Indels: 43
0.68 0.16 0.16
Matches are distributed among these distances:
40 22 0.12
41 10 0.05
42 3 0.02
43 24 0.13
44 81 0.44
45 42 0.23
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTTACTTAG
Found at i:21985056 original size:44 final size:44
Alignment explanation
Indices: 21984951--21985282 Score: 190
Period size: 44 Copynumber: 7.7 Consensus size: 44
21984941 TCCATTAGTT
* * ***
21984951 TGCTCCACTGCAACTTCAGGGAGATAA-AACT-AGA-TGCGATC
1 TGCTCCACTGCAACTTCAGAGAGATAAGATCTGAGATTTTAATC
* *
21984992 TGCT-CTCTGTAACTTCAGAGAGATAAGATCTGAGATTTTAATC
1 TGCTCCACTGCAACTTCAGAGAGATAAGATCTGAGATTTTAATC
* * * * **
21985035 CGCTCCACTGCAACTTTAGAGAGATAGGAT-TGTCGGCTTTAATC
1 TGCTCCACTGCAACTTCAGAGAGATAAGATCTG-AGATTTTAATC
* * * *** * *
21985079 TGCTCCACTGCAACTTCAGGGAGATACGATTTGTCCTCTTCACTC
1 TGCTCCACTGCAACTTCAGAGAGATAAGATCTGAGAT-TTTAATC
* * * *
21985124 TGC-CTCACTGCAACTTTAG-GAGGATAAGA-CT-TGCTTACTTAGTC
1 TGCTC-CACTGCAACTTCAGAGA-GATAAGATCTGAGATT--TTAATC
* *
21985168 TGCTCCACTGCAACTTCA-AGGAGATAAGA-CT-AGA-TGTGATC
1 TGCTCCACTGCAACTTCAGA-GAGATAAGATCTGAGATTTTAATC
* * *
21985209 TACT-CTCTACAACTTCAGAGAGATAAGATCTGAGATTTTAAT-
1 TGCTCCACTGCAACTTCAGAGAGATAAGATCTGAGATTTTAATC
* * *
21985251 TCGCTCCACTGCATCTTCAGGGAGATAGGATC
1 T-GCTCCACTGCAACTTCAGAGAGATAAGATC
21985283 CCGACCACTA
Statistics
Matches: 223, Mismatches: 48, Indels: 37
0.72 0.16 0.12
Matches are distributed among these distances:
40 39 0.17
41 16 0.07
42 8 0.04
43 19 0.09
44 109 0.49
45 32 0.14
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGAGAGATAAGATCTGAGATTTTAATC
Found at i:21985059 original size:141 final size:141
Alignment explanation
Indices: 21984804--21985085 Score: 449
Period size: 141 Copynumber: 2.0 Consensus size: 141
21984794 ATTTGCTTAC
* * *
21984804 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTTAG
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGCAACTTCAG
* *
21984869 AAAGATAAGATCTGAGACTTTAATCCGCTCCACCACAATTTCAGGGAGATAGGATTGTCGGTTTT
66 AAAGATAAGATCTGAGACTTTAATCCGCTCCACCACAATTTCAGAGAGATAGGATTGTCGGCTTT
21984934 AATCTGCTCCA
131 AATCTGCTCCA
* *
21984945 TTAGTTTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGTAACTTCAG
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGCAACTTCAG
* * **
21985010 AGAGATAAGATCTGAGATTTTAATCCGCTCCACTGCAACTTT-AGAGAGATAGGATTGTCGGCTT
66 AAAGATAAGATCTGAGACTTTAATCCGCTCCACCACAA-TTTCAGAGAGATAGGATTGTCGGCTT
21985074 TAATCTGCTCCA
130 TAATCTGCTCCA
21985086 CTGCAACTTC
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
141 126 0.98
142 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (141 bp):
TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGCAACTTCAG
AAAGATAAGATCTGAGACTTTAATCCGCTCCACCACAATTTCAGAGAGATAGGATTGTCGGCTTT
AATCTGCTCCA
Found at i:21985258 original size:358 final size:358
Alignment explanation
Indices: 21984587--21985281 Score: 1081
Period size: 358 Copynumber: 1.9 Consensus size: 358
21984577 ATTTGCTTAC
*
21984587 TTAGTCTGCTCCACTACAACTTCAGGGAGACAAGACTAGACGCGATCTGCTCTCTGCAACTTCAG
1 TTAGTCTGCTCCACTACAACTTCAGGGAGACAAAACTAGACGCGATCTGCTCTCTGCAACTTCAG
* * *
21984652 AGAGATAAGATCTGAGATTTTAATCCGCTCAAGTGCGACTTCAGGGAGACAGAATTGTCGGCTTT
66 AGAGATAAGATCTGAGATTTTAATCCGCTCAACTGCAACTTCAGAGAGACAGAATTGTCGGCTTT
*
21984717 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTC
131 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCACTCTACCTCACTGCAACTC
* * *
21984782 CGGAAGGATAAGATTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGT
196 AGGAAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGT
* * *
21984847 GATCTGCTCTCTGCAACTTTAGAAAGATAAGATCTGAGACTTTAATCCGCTCCACCACAAT-TTC
261 GATCTACTCTCTACAACTTCAGAAAGATAAGATCTGAGACTTTAATCCGCTCCACCAC-ATCTTC
21984911 AGGGAGATAGGATTGTCGGTTTTAATCTGCTCCA
325 AGGGAGATAGGATTGTCGGTTTTAATCTGCTCCA
* * * * *
21984945 TTAGTTTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATCTGCTCTCTGTAACTTCAG
1 TTAGTCTGCTCCACTACAACTTCAGGGAGACAAAACTAGACGCGATCTGCTCTCTGCAACTTCAG
* * * *
21985010 AGAGATAAGATCTGAGATTTTAATCCGCTCCACTGCAACTTTAGAGAGATAGGATTGTCGGCTTT
66 AGAGATAAGATCTGAGATTTTAATCCGCTCAACTGCAACTTCAGAGAGACAGAATTGTCGGCTTT
* * *
21985075 AATCTGCTCCACTGCAACTTCAGGGAGATACGATTTGTCC-TCTTCACTCTGCCTCACTGCAACT
131 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTG-CCATCTTCACTCTACCTCACTGCAAC-
*
21985139 TTAGG-AGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGAT
194 TCAGGAAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGAT
* * * **
21985203 GTGATCTACTCTCTACAACTTCAGAGAGATAAGATCTGAGATTTTAATTCGCTCCACTGCATCTT
259 GTGATCTACTCTCTACAACTTCAGAAAGATAAGATCTGAGACTTTAATCCGCTCCACCACATCTT
21985268 CAGGGAGATAGGAT
324 CAGGGAGATAGGAT
21985282 CCCGACCACT
Statistics
Matches: 305, Mismatches: 29, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
357 2 0.01
358 298 0.98
359 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (358 bp):
TTAGTCTGCTCCACTACAACTTCAGGGAGACAAAACTAGACGCGATCTGCTCTCTGCAACTTCAG
AGAGATAAGATCTGAGATTTTAATCCGCTCAACTGCAACTTCAGAGAGACAGAATTGTCGGCTTT
AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCACTCTACCTCACTGCAACTC
AGGAAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGT
GATCTACTCTCTACAACTTCAGAAAGATAAGATCTGAGACTTTAATCCGCTCCACCACATCTTCA
GGGAGATAGGATTGTCGGTTTTAATCTGCTCCA
Found at i:21998120 original size:21 final size:22
Alignment explanation
Indices: 21998079--21998121 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21998069 TTCGTATGTA
21998079 AAATAAAAATATACAAAAAAAT
1 AAATAAAAATATACAAAAAAAT
*
21998101 AAATAAATATA-ACAACAAAAA
1 AAATAAAAATATACAA-AAAAA
21998122 ACAAGCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (22 bp):
AAATAAAAATATACAAAAAAAT
Found at i:22006092 original size:40 final size:40
Alignment explanation
Indices: 22005994--22006296 Score: 389
Period size: 40 Copynumber: 7.6 Consensus size: 40
22005984 TCCTCGTTCA
* * * ** *
22005994 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
22006033 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
22006073 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
22006113 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
22006153 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
22006193 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
22006233 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
22006273 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22006297 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 194 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:22011542 original size:87 final size:87
Alignment explanation
Indices: 22011396--22011568 Score: 301
Period size: 87 Copynumber: 2.0 Consensus size: 87
22011386 GAAGTGGTCC
*
22011396 ACTGATCCGCATTTGTAACAGGAGCGGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCA
1 ACTGATCCGCACTTGTAACAGGAGCGGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCA
*
22011461 ATATCGACATTCCGTTCTGTCA
66 ATATCGACATTCCGTCCTGTCA
*
22011483 ACTGATCCGCACTTGTAACAGGAGCGGTCAGGGAATCTACAACTCCCCGAATGCCATTTACCGCA
1 ACTGATCCGCACTTGTAACAGGAGCGGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCA
* *
22011548 ATATCGGCATTTCGTCCTGTC
66 ATATCGACATTCCGTCCTGTC
22011569 TCGACGTTCA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (87 bp):
ACTGATCCGCACTTGTAACAGGAGCGGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCA
ATATCGACATTCCGTCCTGTCA
Found at i:22014171 original size:40 final size:39
Alignment explanation
Indices: 22014073--22014335 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
22014063 TCCTCGTTCA
* * * *
22014073 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
22014112 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
22014151 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
22014191 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
22014231 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
22014271 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
22014312 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22014336 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:22014295 original size:120 final size:119
Alignment explanation
Indices: 22014073--22014335 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
22014063 TCCTCGTTCA
* * *
22014073 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
22014138 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
22014191 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
22014256 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
22014312 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
22014336 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:22014344 original size:41 final size:41
Alignment explanation
Indices: 22014267--22014344 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
22014257 TTTGTATCTC
* * *
22014267 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
22014308 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
22014345 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:22028270 original size:21 final size:21
Alignment explanation
Indices: 22028230--22028272 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22028220 GTTGTTGAGA
*
22028230 AGGAAGTTGGTACTGCAGAAG
1 AGGAAGTTGGTACTGAAGAAG
* *
22028251 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTGGTACTGAAGAAG
22028272 A
1 A
22028273 AGAAATTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.37, T:0.21
Consensus pattern (21 bp):
AGGAAGTTGGTACTGAAGAAG
Found at i:22041051 original size:24 final size:22
Alignment explanation
Indices: 22040979--22041054 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 22
22040969 TCATTAAGGA
*
22040979 TTATCGATTGCAGCTCGTGAGAGC
1 TTATCGATTTCAGCTC--GAGAGC
* *
22041003 TTACCAATTCTCAGCTCGTATGAGC
1 TTATCGATT-TCAGCTCG-A-GAGC
22041028 TTATCGATTTCAGCTCAAGAGAGC
1 TTATCGATTTCAGCTC--GAGAGC
22041052 TTA
1 TTA
22041055 CCAATTTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
23 1 0.02
24 22 0.52
25 18 0.43
26 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (22 bp):
TTATCGATTTCAGCTCGAGAGC
Found at i:22041051 original size:49 final size:49
Alignment explanation
Indices: 22040979--22041125 Score: 197
Period size: 49 Copynumber: 3.0 Consensus size: 49
22040969 TCATTAAGGA
*
22040979 TTATCGATTGCAGCTCGTGAGAGCTTACCAATTCTCAGCTCGTATGAGC
1 TTATCGATTTCAGCTCGTGAGAGCTTACCAATTCTCAGCTCGTATGAGC
** * *
22041028 TTATCGATTTCAGCTCAAGAGAGCTTACCAATTTTGAGCTCGTATGAGC
1 TTATCGATTTCAGCTCGTGAGAGCTTACCAATTCTCAGCTCGTATGAGC
* * **
22041077 TTACCGATTGT-AGTTCGTGAGAGCTTACTGATTCTCAGCTCGTATGAGC
1 TTATCGATT-TCAGCTCGTGAGAGCTTACCAATTCTCAGCTCGTATGAGC
22041126 ATAATTTGGC
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 83 0.99
50 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (49 bp):
TTATCGATTTCAGCTCGTGAGAGCTTACCAATTCTCAGCTCGTATGAGC
Found at i:22041100 original size:24 final size:25
Alignment explanation
Indices: 22040983--22041119 Score: 122
Period size: 25 Copynumber: 5.6 Consensus size: 25
22040973 TAAGGATTAT
22040983 CGATTG-CAGCTCGTGAGAGCTTAC
1 CGATTGTCAGCTCGTGAGAGCTTAC
* * *
22041007 CAATTCTCAGCTCGT-ATGAGCTTAT
1 CGATTGTCAGCTCGTGA-GAGCTTAC
**
22041032 CGATT-TCAGCTCAAGAGAGCTTAC
1 CGATTGTCAGCTCGTGAGAGCTTAC
* * *
22041056 CAATTTTGAGCTCGT-ATGAGCTTAC
1 CGATTGTCAGCTCGTGA-GAGCTTAC
*
22041081 CGATTGT-AGTTCGTGAGAGCTTAC
1 CGATTGTCAGCTCGTGAGAGCTTAC
* *
22041105 TGATTCTCAGCTCGT
1 CGATTGTCAGCTCGT
22041120 ATGAGCATAA
Statistics
Matches: 89, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
24 43 0.48
25 46 0.52
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (25 bp):
CGATTGTCAGCTCGTGAGAGCTTAC
Found at i:22046174 original size:20 final size:20
Alignment explanation
Indices: 22046135--22046174 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22046125 GATCTAAAAT
* *
22046135 AATAATTTCATTCAATTAAC
1 AATAATTTCATTAAAGTAAC
22046155 AATAATTTCATTAAAGTAAC
1 AATAATTTCATTAAAGTAAC
22046175 TAATTCTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (20 bp):
AATAATTTCATTAAAGTAAC
Found at i:22048563 original size:42 final size:43
Alignment explanation
Indices: 22048499--22048650 Score: 193
Period size: 42 Copynumber: 3.6 Consensus size: 43
22048489 TAACCGTTAC
* * *
22048499 TCGGTGGAATCAGCACCTAGCAACCACCTTTAGAATCAATAAT
1 TCGGTGGAATCAACACTTAGCAACCACCTTTAGAATCAACAAT
* * * **
22048542 TCGG-GGAATCAGCACTTAGCAACC-CCTCTCACAATCAAGGAT
1 TCGGTGGAATCAACACTTAGCAACCACCT-TTAGAATCAACAAT
*
22048584 ACGGTGGAATCAACACTTAGCAACCACCTTTAGAATCAACAAT
1 TCGGTGGAATCAACACTTAGCAACCACCTTTAGAATCAACAAT
22048627 TCGG-GGAATCAACACTTAGCAACC
1 TCGGTGGAATCAACACTTAGCAACC
22048651 CCTCGGGGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
41 3 0.03
42 52 0.55
43 36 0.38
44 3 0.03
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (43 bp):
TCGGTGGAATCAACACTTAGCAACCACCTTTAGAATCAACAAT
Found at i:22048649 original size:26 final size:26
Alignment explanation
Indices: 22048620--22048672 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
22048610 CCTTTAGAAT
*
22048620 CAACAATTCGGGGAATCAACACTTAG
1 CAACAACTCGGGGAATCAACACTTAG
** **
22048646 CAACCCCTCGGGGAATCTGCACTTAG
1 CAACAACTCGGGGAATCAACACTTAG
22048672 C
1 C
22048673 GACCCCTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (26 bp):
CAACAACTCGGGGAATCAACACTTAG
Found at i:22048677 original size:26 final size:26
Alignment explanation
Indices: 22048627--22048679 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
22048617 AATCAACAAT
22048627 TCGGGGAATCAACACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
** *
22048653 TCGGGGAATCTGCACTTAGCGACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
22048679 T
1 T
22048680 TTTACAGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAACACTTAGCAACCCC
Found at i:22048927 original size:15 final size:16
Alignment explanation
Indices: 22048898--22048929 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22048888 AATCCAGTCC
22048898 AAAAATCACATTTTTG
1 AAAAATCACATTTTTG
*
22048914 AAAAATTACATTTTTG
1 AAAAATCACATTTTTG
22048930 CCCCTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAAATCACATTTTTG
Found at i:22057152 original size:19 final size:15
Alignment explanation
Indices: 22057110--22057141 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
22057100 TTATGTATAC
22057110 ATATCATTCAAATTA
1 ATATCATTCAAATTA
22057125 ATATCATTCAAATTA
1 ATATCATTCAAATTA
22057140 AT
1 AT
22057142 CTCAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATCATTCAAATTA
Found at i:22062360 original size:26 final size:26
Alignment explanation
Indices: 22062326--22062432 Score: 115
Period size: 26 Copynumber: 4.1 Consensus size: 26
22062316 AACACACCAA
* **
22062326 TATCACAGCAAAGCTGCCAGTATTAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
22062352 TAACGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* ** * * *
22062378 TATCACAATAGAGCCGCCAGTATCAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
22062404 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
22062430 TAT
1 TAT
22062433 TTGTGGCAAA
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 63 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:22062750 original size:80 final size:80
Alignment explanation
Indices: 22062641--22062955 Score: 359
Period size: 80 Copynumber: 3.9 Consensus size: 80
22062631 TACCCCTCTG
* * * *
22062641 GGGTATTTC-GATAATTTTACCCTTCGAGGGCATTTTGGTAATTTTACCCTTCAAGGGTAATTT-
1 GGGTATTTCAG-TAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCATCGAGGGT-ATTTC
* *
22062704 GGTAATTTTTCTTTTTCA
64 GATAATTTTAC-TTTTCA
* * * *
22062722 -GGTATTTCAGTAATTTTACCTTTTGAGGGTATTTCGGTAATTTTACCCTTC-AGGGTATTTAGA
1 GGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCGA
* *
22062785 TAATTTTACCCTTTGA
66 TAATTTTA-CTTTTCA
** * * ** * *
22062801 GGGTATTTTGGTAATTTTACCTTTCAAGGGTATTTTAGTAATTTTTCCCATCGAGGGTATTTCGG
1 GGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCGA
*
22062866 TAATTTTACTCTTCA
66 TAATTTTACTTTTCA
*
22062881 TGGGTATTTCAATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCG
1 -GGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCG
22062946 ATAATTTTAC
65 ATAATTTTAC
22062956 CCACGAATCA
Statistics
Matches: 198, Mismatches: 30, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
78 4 0.02
79 17 0.09
80 93 0.47
81 84 0.42
ACGTcount: A:0.22, C:0.15, G:0.18, T:0.45
Consensus pattern (80 bp):
GGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTCGA
TAATTTTACTTTTCA
Found at i:22062751 original size:53 final size:53
Alignment explanation
Indices: 22062627--22062957 Score: 366
Period size: 54 Copynumber: 6.2 Consensus size: 53
22062617 TATAACGGTC
* * * **
22062627 ATTTTACCCCTCTG-GGGTATTTCGATAATTTTACCCTTCGAGGGCATTTTGGTA
1 ATTTTACCCTTC-GAGGGTATTTCGGTAATTTTACCCTTC-AGGGTATTTCAGTA
* * **
22062681 ATTTTACCCTTCAAGGGTAATTT-GGTAATTTTTCTTTTTCA-GGTATTTCAGTA
1 ATTTTACCCTTCGAGGGT-ATTTCGGTAATTTTAC-CCTTCAGGGTATTTCAGTA
* *
22062734 ATTTTACCTTTTGAGGGTATTTCGGTAATTTTACCCTTCAGGGTATTT-AGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCAGGGTATTTCAG-TA
* * * *
22062787 ATTTTACCCTTTGAGGGTATTTTGGTAATTTTACCTTTCAAGGGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTC-AGGGTATTTCAGTA
* * * *
22062841 ATTTTTCCCATCGAGGGTATTTCGGTAATTTTACTCTTCATGGGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCA-GGGTATTTCAGTA
*
22062895 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTC-GATA
1 ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTC-AGGGTATTTCAG-TA
22062949 ATTTTACCC
1 ATTTTACCC
22062958 ACGAATCACA
Statistics
Matches: 235, Mismatches: 31, Indels: 22
0.82 0.11 0.08
Matches are distributed among these distances:
52 10 0.04
53 80 0.34
54 135 0.57
55 10 0.04
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (53 bp):
ATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCAGGGTATTTCAGTA
Found at i:22062958 original size:27 final size:27
Alignment explanation
Indices: 22062627--22062957 Score: 318
Period size: 27 Copynumber: 12.3 Consensus size: 27
22062617 TATAACGGTC
*
22062627 ATTTTACCCCTCTG-GGGTATTTCGATA
1 ATTTTACCCTTC-GAGGGTATTTCGATA
* * *
22062654 ATTTTACCCTTCGAGGGCATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
22062681 ATTTTACCCTTCAAGGGTAATTT-GGTA
1 ATTTTACCCTTCGAGGGT-ATTTCGATA
* **
22062708 ATTTTTCTTTTTC-A-GGTATTTC-AGTA
1 ATTTTAC-CCTTCGAGGGTATTTCGA-TA
* * *
22062734 ATTTTACCTTTTGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
22062761 ATTTTACCCTTC-AGGGTATTTAGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * *
22062787 ATTTTACCCTTTGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * *
22062814 ATTTTACCTTTCAAGGGTATTT-TAGTA
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
* * *
22062841 ATTTTTCCCATCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
22062868 ATTTTACTCTTC-ATGGGTATTTCAATA
1 ATTTTACCCTTCGA-GGGTATTTCGATA
*
22062895 ATTTTACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
22062922 ATTTTACCCATCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
22062949 ATTTTACCC
1 ATTTTACCC
22062958 ACGAATCACA
Statistics
Matches: 249, Mismatches: 42, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
25 7 0.03
26 37 0.15
27 197 0.79
28 8 0.03
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:22069339 original size:23 final size:23
Alignment explanation
Indices: 22069292--22069344 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
22069282 ACTTGTAACC
*
22069292 TTCAAAAATAATTCAAAATAGTT
1 TTCAAAAACAATTCAAAATAGTT
* *
22069315 TTCCAAAAACAATTCTAGATA-TT
1 TT-CAAAAACAATTCAAAATAGTT
22069338 TTCAAAA
1 TTCAAAA
22069345 CCATTCCACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 5 0.19
23 6 0.23
24 15 0.58
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (23 bp):
TTCAAAAACAATTCAAAATAGTT
Found at i:22070004 original size:28 final size:28
Alignment explanation
Indices: 22069964--22070018 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
22069954 CAGTAGCAGT
* * *
22069964 GTGTGGGCCTTAGCCCAAAACAGTAATA
1 GTGTGGACCTTAGCACAAAACAATAATA
22069992 GTGTGGACCTTAGCACAAAACAATAAT
1 GTGTGGACCTTAGCACAAAACAATAAT
22070019 CAATACAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (28 bp):
GTGTGGACCTTAGCACAAAACAATAATA
Found at i:22070215 original size:52 final size:52
Alignment explanation
Indices: 22070123--22070222 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
22070113 GCCAACACAC
* * *
22070123 CAATATCACAGCAAAGCTGCCAGTATCAGTTACGTAACAAAGCTGCCAGTAA
1 CAATATCACAACAAAGCTACCAGTATCAGTTACGTAACAAAGCAGCCAGTAA
* *
22070175 CAATATCACAATAGAGCTACCAGTATCAG-TATCGCT-ACAAAGCAGCCA
1 CAATATCACAACAAAGCTACCAGTATCAGTTA-CG-TAACAAAGCAGCCA
22070223 ATAATAGTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 2 0.05
52 38 0.93
53 1 0.02
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (52 bp):
CAATATCACAACAAAGCTACCAGTATCAGTTACGTAACAAAGCAGCCAGTAA
Found at i:22070477 original size:27 final size:27
Alignment explanation
Indices: 22070427--22070703 Score: 299
Period size: 27 Copynumber: 10.3 Consensus size: 27
22070417 TATAACGATT
*
22070427 ATTTTACCCTT-TAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
22070453 ATTTTACCCTTCAAGGGCATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
22070480 ATTTTACCCTTCGAGGGTATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * ***
22070507 ATTTTTCCCTTCGACGGTATTTTAATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* **
22070534 AATTTACCCTTC-AGGGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
22070560 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
22070587 ATTTTACCCATCGAGAGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
*
22070614 ATTTTACCCTTCGACGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
22070641 ATTTTACCTTTTGGGGGTATATT-GGTA
1 ATTTTACCCTTCGAGGGTAT-TTCGGTA
* * * *
22070668 ATGTTACCCATCGAGGGTATTTCAGTG
1 ATTTTACCCTTCGAGGGTATTTCGGTA
22070695 ATTTTACCC
1 ATTTTACCC
22070704 ACAAATCGCA
Statistics
Matches: 210, Mismatches: 37, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
26 36 0.17
27 172 0.82
28 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:22070601 original size:107 final size:107
Alignment explanation
Indices: 22070429--22070704 Score: 322
Period size: 107 Copynumber: 2.6 Consensus size: 107
22070419 TAACGATTAT
* * * * * *
22070429 TTTACCCTTTAGGGTATTTCGGTAATTTTACCCTTCAAGGGCATTTCGGTAATTTTACCCTTCGA
1 TTTACCCTTCAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCATCGA
* * * *
22070494 GGGTATTT-TGATAATTTTTCCCTTCGACGGTATTTTAATAAA
66 GAGTATTTCAG-TAATTTTACCCTTCGACGGTATTTCAATAAA
*
22070536 TTTACCCTTCAGGGTATTTTAGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCATCGA
1 TTTACCCTTCAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCATCGA
** *
22070601 GAGTATTTCAGTAATTTTACCCTTCGACGGTATTTCGGTAAT
66 GAGTATTTCAGTAATTTTACCCTTCGACGGTATTTCAATAAA
* ** * * * *
22070643 TTTACCTTTTGGGGGTATATTGGTAATGTTACCCATCGAGGGTATTTC-AGTGATTTTACCCA
1 TTTACC-CTTCAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCGA-TAATTTTACCCA
22070705 CAAATCGCAT
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
107 98 0.68
108 46 0.32
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (107 bp):
TTTACCCTTCAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCATCGA
GAGTATTTCAGTAATTTTACCCTTCGACGGTATTTCAATAAA
Found at i:22076329 original size:19 final size:19
Alignment explanation
Indices: 22076305--22076343 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
22076295 AATTTCATAA
*
22076305 ATTATACCATAAATTTATC
1 ATTATAACATAAATTTATC
22076324 ATTATAACATAAATTTATC
1 ATTATAACATAAATTTATC
22076343 A
1 A
22076344 CATTTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTATAACATAAATTTATC
Found at i:22077496 original size:35 final size:35
Alignment explanation
Indices: 22077405--22077557 Score: 130
Period size: 35 Copynumber: 4.4 Consensus size: 35
22077395 CGTATGTTTC
* ***
22077405 TGTTAAGCATGCCA-TAATACTGATTCTGATTAATA
1 TGTTAAGCATGCCACT-ATACTGATTTTGATTCGCA
* ** *
22077440 TCTTAAGCATGGTAGTATACTGATTCTT-ATTCGCA
1 TGTTAAGCATGCCACTATACTGATT-TTGATTCGCA
** * * *
22077475 TGTTAAGCATTTCACTTTACTGATTTTGATTAGCG
1 TGTTAAGCATGCCACTATACTGATTTTGATTCGCA
* *
22077510 TGTTAAGCATGCCACTATATTGATTTTGAATCGCA
1 TGTTAAGCATGCCACTATACTGATTTTGATTCGCA
*
22077545 TGTAAAGCATGCC
1 TGTTAAGCATGCC
22077558 TATTGAAACT
Statistics
Matches: 92, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
34 2 0.02
35 88 0.96
36 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (35 bp):
TGTTAAGCATGCCACTATACTGATTTTGATTCGCA
Found at i:22081925 original size:26 final size:26
Alignment explanation
Indices: 22081896--22081952 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
22081886 AAGTGTTTTG
*
22081896 AAACTGATACATGTTATGATAATCTA
1 AAACTGATAAATGTTATGATAATCTA
*
22081922 AAACTGATAAATGTTATGATATTCTA
1 AAACTGATAAATGTTATGATAATCTA
22081948 AAACT
1 AAACT
22081953 ACTGTAGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (26 bp):
AAACTGATAAATGTTATGATAATCTA
Found at i:22091807 original size:21 final size:22
Alignment explanation
Indices: 22091778--22091824 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
22091768 CAGAAGGAGT
*
22091778 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
22091800 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
22091821 GAGT
1 GAGT
22091825 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:22111863 original size:14 final size:14
Alignment explanation
Indices: 22111832--22111874 Score: 65
Period size: 13 Copynumber: 3.3 Consensus size: 14
22111822 TAAGGCCATG
22111832 TTTT-TTTCTTTC-
1 TTTTCTTTCTTTCT
22111844 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
22111858 TTTTCTTTC-TTCT
1 TTTTCTTTCTTTCT
22111871 TTTT
1 TTTT
22111875 ACTATACTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.14
13 16 0.55
14 9 0.31
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:22115491 original size:19 final size:18
Alignment explanation
Indices: 22115438--22115495 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
22115428 TCAGTCATAA
* *
22115438 TACTTTTGTCTTTGTTCT
1 TACTTTTGTTTTTTTTCT
22115456 GTACTTTT-TCTTCTTTTTCT
1 -TACTTTTGT-TT-TTTTTCT
22115476 TACTTTTGATTTTTTTTCT
1 TACTTTTG-TTTTTTTTCT
22115495 T
1 T
22115496 TTTTTTCACA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 1 0.03
19 23 0.70
20 8 0.24
21 1 0.03
ACGTcount: A:0.07, C:0.16, G:0.07, T:0.71
Consensus pattern (18 bp):
TACTTTTGTTTTTTTTCT
Found at i:22116683 original size:8 final size:8
Alignment explanation
Indices: 22116635--22116676 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
22116625 AACTAAAATT
*
22116635 AATAATAA
1 AATAAAAA
**
22116643 AATAAACG
1 AATAAAAA
22116651 AATAAAAA
1 AATAAAAA
22116659 AATAAAAA
1 AATAAAAA
22116667 AATAAAAA
1 AATAAAAA
22116675 AA
1 AA
22116677 AATAAAAGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (8 bp):
AATAAAAA
Found at i:22116683 original size:16 final size:16
Alignment explanation
Indices: 22116641--22116683 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
22116631 AATTAATAAT
22116641 AAAATAAACGAATAAAAA
1 AAAATAAA--AATAAAAA
22116659 AATAA-AAAAATAAAAA
1 AA-AATAAAAATAAAAA
22116675 AAAATAAAA
1 AAAATAAAA
22116684 GCAAGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.09
16 14 0.61
18 5 0.22
19 2 0.09
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (16 bp):
AAAATAAAAATAAAAA
Found at i:22118660 original size:29 final size:29
Alignment explanation
Indices: 22118618--22118683 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
22118608 GACATCCCTT
22118618 GAGCACATATCATACAAGTATTGAATTTG
1 GAGCACATATCATACAAGTATTGAATTTG
*
22118647 GAGCACATATCATACAAGTATTGACTTTG
1 GAGCACATATCATACAAGTATTGAATTTG
22118676 GAGCACAT
1 GAGCACAT
22118684 GACTAGGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (29 bp):
GAGCACATATCATACAAGTATTGAATTTG
Found at i:22120277 original size:22 final size:22
Alignment explanation
Indices: 22120227--22120277 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
22120217 AAAAATACCC
22120227 AAAATAAATAGGAAGAGAAAAG
1 AAAATAAATAGGAAGAGAAAAG
**
22120249 AGGATAAATAGGAAGAGAAAAG
1 AAAATAAATAGGAAGAGAAAAG
22120271 AAAATAA
1 AAAATAA
22120278 GAAAAAAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.10
Consensus pattern (22 bp):
AAAATAAATAGGAAGAGAAAAG
Found at i:22127874 original size:28 final size:28
Alignment explanation
Indices: 22127834--22127890 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
22127824 CAGTATCAGT
* *
22127834 ACAGTGTGGGCCTTAGCCCATTACAATA
1 ACAGTGTGAGCCTTAGCCCAATACAATA
22127862 ACAGTGTGAGCCTTAGCCCAATACAATA
1 ACAGTGTGAGCCTTAGCCCAATACAATA
22127890 A
1 A
22127891 TCAATACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (28 bp):
ACAGTGTGAGCCTTAGCCCAATACAATA
Found at i:22128029 original size:26 final size:26
Alignment explanation
Indices: 22128000--22128072 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
22127990 CACCAATATC
* * *
22128000 GCAGTAAAGCTGCCAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
*
22128026 GCAGCAAAGTTGCCAGTAACAGTAAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
*
22128052 GCAGGAAAGCTGCCAGTAACA
1 GCAGCAAAGCTGCCAGTAACA
22128073 ATATATGTGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAT
Found at i:22128395 original size:54 final size:54
Alignment explanation
Indices: 22128252--22128407 Score: 242
Period size: 53 Copynumber: 2.9 Consensus size: 54
22128242 TATAACAATC
* * **
22128252 ATTTTACCCTTAGGGGGTAATTCAATAATTTTACCCTTTGAGGGTATTTCGGTA
1 ATTTTACCCTTAGAGGGTATTTCAATAATTTTACCCTTCAAGGGTATTTCGGTA
*
22128306 ATTTTA-CCTTTGAGGGTATTTCAATAATTTTACCCTTCAAGGGTATTTCGGTA
1 ATTTTACCCTTAGAGGGTATTTCAATAATTTTACCCTTCAAGGGTATTTCGGTA
* *
22128359 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCAAGGGTATTT
1 ATTTTACCCTTAGAGGGTATTTCAATAATTTTACCCTTCAAGGGTATTT
22128408 AAGTTATTTG
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 48 0.51
54 46 0.49
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (54 bp):
ATTTTACCCTTAGAGGGTATTTCAATAATTTTACCCTTCAAGGGTATTTCGGTA
Found at i:22128397 original size:27 final size:27
Alignment explanation
Indices: 22128252--22128407 Score: 206
Period size: 27 Copynumber: 5.8 Consensus size: 27
22128242 TATAACAATC
* * * *
22128252 ATTTTACCCTTAGGGGGTAATTCAATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
22128279 ATTTTACCCTTTGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
22128306 ATTTTA-CCTTTGAGGGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
22128332 ATTTTACCCTTCAAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
22128359 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
22128386 ATTTTACCCTTCAAGGGTATTT
1 ATTTTACCCTTCGAGGGTATTT
22128408 AAGTTATTTG
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
26 24 0.21
27 90 0.79
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:22131872 original size:26 final size:26
Alignment explanation
Indices: 22131807--22131876 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
22131797 CTTTACATCG
*
22131807 TTGCTCACACG-AGCTGGGAAATGGGT
1 TTGCTCACA-GAAGCTGTGAAATGGGT
* * *
22131833 TTGCCCATACAAGCTGTGAAATGGGT
1 TTGCTCACAGAAGCTGTGAAATGGGT
22131859 TTGCTCACAGAAGCTGTG
1 TTGCTCACAGAAGCTGTG
22131877 GGTCAAAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (26 bp):
TTGCTCACAGAAGCTGTGAAATGGGT
Found at i:22133611 original size:16 final size:16
Alignment explanation
Indices: 22133586--22133616 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22133576 AAATAAATAA
22133586 ATTCAATCTATTTAAT
1 ATTCAATCTATTTAAT
*
22133602 ATTCATTCTATTTAA
1 ATTCAATCTATTTAA
22133617 CTCAATCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTCAATCTATTTAAT
Found at i:22147600 original size:13 final size:13
Alignment explanation
Indices: 22147582--22147611 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
22147572 TATTTCAGGT
22147582 GTTTTGCATTTTG
1 GTTTTGCATTTTG
22147595 GTTTTGCATTTTG
1 GTTTTGCATTTTG
22147608 GTTT
1 GTTT
22147612 ATTTTTCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.23, T:0.63
Consensus pattern (13 bp):
GTTTTGCATTTTG
Found at i:22166106 original size:40 final size:40
Alignment explanation
Indices: 22166062--22166323 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
22166052 GCTCCTCGTT
* *
22166062 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
22166102 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
22166142 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
22166181 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
22166220 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
22166259 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
22166300 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22166324 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:22173623 original size:14 final size:14
Alignment explanation
Indices: 22173604--22173631 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22173594 TAAATTTATA
22173604 TTTAATATTTCATT
1 TTTAATATTTCATT
22173618 TTTAATATTTCATT
1 TTTAATATTTCATT
22173632 AATAAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATATTTCATT
Found at i:22174101 original size:19 final size:19
Alignment explanation
Indices: 22174079--22174116 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22174069 TTAATCATCC
22174079 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
22174098 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
22174117 ACTCTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:22192975 original size:20 final size:20
Alignment explanation
Indices: 22192950--22193024 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
22192940 GATGTAAAAA
*
22192950 AGGGGCACCAAAGTGCAATC
1 AGGGGCACCAGAGTGCAATC
* * *
22192970 AGGGGCATCGGAGTGCAATT
1 AGGGGCACCAGAGTGCAATC
* * * *
22192990 AAGAGCACGAGTGTGCAATC
1 AGGGGCACCAGAGTGCAATC
*
22193010 AGGGGCACCCGAGTG
1 AGGGGCACCAGAGTG
22193025 TAGTCAAGGG
Statistics
Matches: 39, Mismatches: 16, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.29, C:0.21, G:0.36, T:0.13
Consensus pattern (20 bp):
AGGGGCACCAGAGTGCAATC
Found at i:22193045 original size:40 final size:40
Alignment explanation
Indices: 22192962--22193058 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
22192952 GGGCACCAAA
* * * *
22192962 GTGCAATCAGGGGCATCGGAGTGCAATTAAGAGCACGAGT
1 GTGCAATCAGGGGCACCCGAGTGCAATCAAGAGCACGAAT
* * * *
22193002 GTGCAATCAGGGGCACCCGAGTGTAGTCAAGGGGACGAAT
1 GTGCAATCAGGGGCACCCGAGTGCAATCAAGAGCACGAAT
*
22193042 GTGC-TTACAGGGGCACC
1 GTGCAAT-CAGGGGCACC
22193059 GAAGTGTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.02
40 46 0.98
ACGTcount: A:0.27, C:0.21, G:0.36, T:0.16
Consensus pattern (40 bp):
GTGCAATCAGGGGCACCCGAGTGCAATCAAGAGCACGAAT
Found at i:22193206 original size:13 final size:13
Alignment explanation
Indices: 22193188--22193212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22193178 ATAAAATTCA
22193188 TTTCAATTCCATT
1 TTTCAATTCCATT
22193201 TTTCAATTCCAT
1 TTTCAATTCCAT
22193213 GAATATATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTCAATTCCATT
Found at i:22202521 original size:11 final size:11
Alignment explanation
Indices: 22202490--22202514 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22202480 CCACTATTGT
22202490 CGAACCATCAC
1 CGAACCATCAC
22202501 CGAACCATCAC
1 CGAACCATCAC
22202512 CGA
1 CGA
22202515 GTCATCAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.44, G:0.12, T:0.08
Consensus pattern (11 bp):
CGAACCATCAC
Found at i:22203639 original size:50 final size:51
Alignment explanation
Indices: 22203505--22203647 Score: 171
Period size: 50 Copynumber: 2.8 Consensus size: 51
22203495 AGGTGGAAGT
* *
22203505 AGTGGTAGTATATCTACCAATCAGTGGTGGCTTGTCCACAAAATATATATC
1 AGTGGCAGTATATCTACAAATCAGTGGTGGCTTGTCCACAAAATATATATC
* * * * ** *
22203556 AGTGGCAGTATATCTGCATACCAGTGGTCGCTTGTCCACAATGTGT-TATC
1 AGTGGCAGTATATCTACAAATCAGTGGTGGCTTGTCCACAAAATATATATC
* * *
22203606 AGTGGCAGTTTATCTACAAATTAGCGGTGGCTTGTCCACAAA
1 AGTGGCAGTATATCTACAAATCAGTGGTGGCTTGTCCACAAA
22203648 TGGTTTTCGG
Statistics
Matches: 75, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 38 0.51
51 37 0.49
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (51 bp):
AGTGGCAGTATATCTACAAATCAGTGGTGGCTTGTCCACAAAATATATATC
Found at i:22204179 original size:8 final size:8
Alignment explanation
Indices: 22204166--22204196 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
22204156 TTATAAAGGT
22204166 TAATTAAG
1 TAATTAAG
22204174 TAATTAAG
1 TAATTAAG
22204182 TAATTAAG
1 TAATTAAG
22204190 TAATTAA
1 TAATTAA
22204197 ATGATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (8 bp):
TAATTAAG
Found at i:22204906 original size:25 final size:25
Alignment explanation
Indices: 22204868--22204916 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
22204858 AATTGTGTTT
* *
22204868 ATATGTTTTTAATTGAAATATATAG
1 ATATGTTATGAATTGAAATATATAG
**
22204893 ATATGTTATGAATTGTTATATATA
1 ATATGTTATGAATTGAAATATATA
22204917 ATTACTGATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (25 bp):
ATATGTTATGAATTGAAATATATAG
Found at i:22205111 original size:25 final size:25
Alignment explanation
Indices: 22205083--22205161 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
22205073 GATACTCCAC
22205083 AGCTCGTGTGAGCATACCAATTTAT
1 AGCTCGTGTGAGCATACCAATTTAT
* * *
22205108 AGCTCGTGAGAGCATA-CAGATCTAC
1 AGCTCGTGTGAGCATACCA-ATTTAT
* * *
22205133 AGCTCGAGTGAGCATACCGATTCAT
1 AGCTCGTGTGAGCATACCAATTTAT
22205158 AGCT
1 AGCT
22205162 TGTATTAGCA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
24 2 0.05
25 40 0.93
26 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
AGCTCGTGTGAGCATACCAATTTAT
Found at i:22206976 original size:28 final size:29
Alignment explanation
Indices: 22206919--22206976 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 29
22206909 TTTAAATAAA
* *
22206919 TATGGACTTTTATTTATGATTTAGATTTT
1 TATGGACTTTTATTGATGATTTAGACTTT
*
22206948 TATGGAC-TTTATTGCT-ATTTGAGACTTT
1 TATGGACTTTTATTGATGATTT-AGACTTT
22206976 T
1 T
22206977 TTATGTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.16
28 14 0.56
29 7 0.28
ACGTcount: A:0.22, C:0.07, G:0.16, T:0.55
Consensus pattern (29 bp):
TATGGACTTTTATTGATGATTTAGACTTT
Found at i:22208169 original size:116 final size:116
Alignment explanation
Indices: 22208039--22208267 Score: 336
Period size: 116 Copynumber: 2.0 Consensus size: 116
22208029 TTCATACAAA
* * * *
22208039 ATATTAATTGTATATATTTTACCAAATTTATTAATATAAATAGTTTTATTAATTAATTTTAGTTA
1 ATATTAATTGTATATATTTTACCAAATTTATTAATATAAACAATTATATTAATTAATTTTAGTCA
* *
22208104 AAATATAAAAGA-TATGGAAATTAATATTCGTTTGGAAAGAATATAATTAAG
66 AAATATAAAAGACT-TAGAAATTAATATTCGTTTGGAAAAAATATAATTAAG
* * *
22208155 ATATTAATAT-TATATATTTTATCAAATTTATTAATATGAACAATTATATTAATTAATTTTGGTC
1 ATATTAAT-TGTATATATTTTACCAAATTTATTAATATAAACAATTATATTAATTAATTTTAGTC
*
22208219 AAAATATAAAAGACTTAGAAATTAATATTCTTTTGGAAAAAATATAATT
65 AAAATATAAAAGACTTAGAAATTAATATTCGTTTGGAAAAAATATAATT
22208268 CCTTTTTCAA
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
116 99 0.98
117 2 0.02
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.43
Consensus pattern (116 bp):
ATATTAATTGTATATATTTTACCAAATTTATTAATATAAACAATTATATTAATTAATTTTAGTCA
AAATATAAAAGACTTAGAAATTAATATTCGTTTGGAAAAAATATAATTAAG
Done.